FIG. 9.

Cluster analysis of genome-wide expression patterns of TBP mutants. Cluster and Treeview (33) were used to cluster significant changes in gene expression for 811 genes that changed significantly in at least one experiment, using the criteria in reference 24. Each row corresponds to a particular gene, whose expression level is being measured relative to a reference state (an isogenic strain that briefly expresses the TBP null mutant [24]). Each column corresponds to a particular TBP mutant. The color intensities correspond to fold increases (red) or decreases (green) in gene expression. Black and gray correspond to no changes in gene expression, with gray generally indicating that the gene was not expressed in either the reference or test sample. Both the rows and columns were clustered using a hierarchical algorithm. The dendrogram for column clustering is shown. Data from columns 2 to 4 are from reference 24.